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sc-PDB

An Annotated Database of Druggable Binding Sites from the Protein DataBank

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Distribution of Cavity similarities measured by Shaper
You can zoom onto the graph by using the mouse to make a selection

Cavities are compared using Shaper.
For more information, please see the following publication: Desaphy J. et al. Comparison and Druggability Prediction of protein-Ligand Binding sites from pharmacophore-annotated cavity shapes J. Chem. Inf. Model., 2012, 52(8), pp2287-2299

Reference Protein Data Bank Entry :
PDB ID HET Uniprot Name EC Number
1rt1MKCGag-Pol polyprotein2.7.7.49

Complex with similar cavities

PDB ID HET Uniprot Name EC Number Cavity
Similarity		 Align
1rt1MKCGag-Pol polyprotein2.7.7.491.000
1c1bGCAGag-Pol polyprotein2.7.7.490.676
3dmjGWEPol protein/0.602
3dleGFAGag-Pol polyprotein2.7.7.490.595
1c1c612Gag-Pol polyprotein2.7.7.490.588
3ffi3OBGag-Pol polyprotein2.7.7.490.586
1tktH12Gag-Pol polyprotein2.7.7.490.581
3c6uM22Gag-Pol polyprotein2.7.7.490.576
3dokGWJPol protein/0.575
3c6tM14Gag-Pol polyprotein2.7.7.490.574
3is9AC7Gag-Pol polyprotein2.7.7.490.570
3lalKRVGag-Pol polyprotein2.7.7.490.563
4h4m494Gag-Pol polyprotein2.7.7.490.561
2be2R22Gag-Pol polyprotein2.7.7.490.557
3dlgGWEGag-Pol polyprotein2.7.7.490.557
4rw6494Gag-Pol polyprotein2.7.7.490.557
1rtiHEFGag-Pol polyprotein2.7.7.490.555
1klmSPPGag-Pol polyprotein2.7.7.490.554
3t1a5MAGag-Pol polyprotein2.7.7.490.553
4mfb29TGag-Pol polyprotein2.7.7.490.552
3dyaPZLGag-Pol polyprotein2.7.7.490.549
3lanKBTGag-Pol polyprotein2.7.7.490.545
3drrR8EGag-Pol polyprotein2.7.7.490.544
3irxUDRGag-Pol polyprotein2.7.7.490.543
1jlaTNKGag-Pol polyprotein2.7.7.490.541
2ze2T27Gag-Pol polyprotein2.7.7.490.541
4h4o506Gag-Pol polyprotein2.7.7.490.540
2jleI15Reverse transcriptase/RNaseH/0.533
4rw4494Gag-Pol polyprotein2.7.7.490.527
2wonZZEGag-Pol polyprotein2.7.7.490.526
1rt5UC2Gag-Pol polyprotein2.7.7.490.523
3lamKRPGag-Pol polyprotein2.7.7.490.523
2ynhEURGag-Pol polyprotein2.7.7.490.522
3t195MAGag-Pol polyprotein2.7.7.490.521
3tamM06Gag-Pol polyprotein2.7.7.490.521
2b5j3ACGag-Pol polyprotein2.7.7.490.518
4id5T27Gag-Pol polyprotein2.7.7.490.518
3qlhT27Gag-Pol polyprotein2.7.7.490.517
3i0rRT3Gag-Pol polyprotein2.7.7.490.514
4i7fNVEGag-Pol polyprotein2.7.7.490.513
3drpR8EGag-Pol polyprotein2.7.7.490.512
3di6PDZGag-Pol polyprotein2.7.7.490.510
1rt7UC4Gag-Pol polyprotein2.7.7.490.509
1hpzAAPGag-Pol polyprotein2.7.7.490.508
4i2pG73Gag-Pol polyprotein2.7.7.490.507
1tl1H18Gag-Pol polyprotein2.7.7.490.504
2ban357Gag-Pol polyprotein2.7.7.490.504
3e01PZ2Gag-Pol polyprotein2.7.7.490.504
4lsl1YQGag-Pol polyprotein2.7.7.490.504
4i2q1BTGag-Pol polyprotein2.7.7.490.501
1hnvTBOGag-Pol polyprotein2.7.7.490.499
2zd1T27Gag-Pol polyprotein2.7.7.490.499
3dolGWIPol protein/0.498
3lakKR1Gag-Pol polyprotein2.7.7.490.498
1tvrTB9Gag-Pol polyprotein2.7.7.490.497
1ep4S11Gag-Pol polyprotein2.7.7.490.496
1tl3H20Gag-Pol polyprotein2.7.7.490.496
4g1qT27Gag-Pol polyprotein2.7.7.490.492
1rt4UC1Gag-Pol polyprotein2.7.7.490.491
2ynfWHUGag-Pol polyprotein2.7.7.490.488
4ifvT27Gag-Pol polyprotein2.7.7.490.488
2opsHBQGag-Pol polyprotein2.7.7.490.485
1hquHBYGag-Pol polyprotein2.7.7.490.484
1revTB9Gag-Pol polyprotein2.7.7.490.481
3nbpJGZGag-Pol polyprotein2.7.7.490.479
2rkiTT1Gag-Pol polyprotein2.7.7.490.476
1hniAAAGag-Pol polyprotein2.7.7.490.472
1s1vTNKGag-Pol polyprotein2.7.7.490.472
1tkzH16Gag-Pol polyprotein2.7.7.490.471
3bgrT27Gag-Pol polyprotein2.7.7.490.467
1jlcFTCGag-Pol polyprotein2.7.7.490.458
3m8qDJZGag-Pol polyprotein2.7.7.490.456
1vruAAPGag-Pol polyprotein2.7.7.490.455
3gwfFADCyclohexanone monooxygenase/0.454
3m8p65BGag-Pol polyprotein2.7.7.490.454
4qa0SHHHistone deacetylase 83.5.1.980.453
1s1tUC1Gag-Pol polyprotein2.7.7.490.452
3inwJZBHeat shock protein HSP 90-alpha/0.452
1zdwFLVPrenyltransferase/0.450
1ikyMSDGag-Pol polyprotein2.7.7.490.449
3qm4PN0Cytochrome P450 2D6/0.449
4kko1REGag-Pol polyprotein2.7.7.490.449
2h9iEADEnoyl-[acyl-carrier-protein] reductase [NADH]1.3.1.90.446
3rfmCFFAdenosine receptor A2a/0.446
4ko0JLJGag-Pol polyprotein2.7.7.490.444
4ug7H4BNitric oxide synthase oxygenase1.14.13.1650.444
4ugaH4BNitric oxide synthase oxygenase1.14.13.1650.444
3qpnPFKcAMP and cAMP-inhibited cGMP 3',5'-cyclic phosphodiesterase 10A3.1.4.170.443
5cyqT27Gag-Pol polyprotein2.7.7.490.443
1oc1ASVIsopenicillin N synthase1.21.3.10.442
4ig3T27Gag-Pol polyprotein2.7.7.490.442
1s6qTPBGag-Pol polyprotein2.7.7.490.441
2ykjYKJHeat shock protein HSP 90-alpha/0.441
1eetBFUGag-Pol polyprotein2.7.7.490.440